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. 2020 May 15;10:8024. doi: 10.1038/s41598-020-64895-4

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© The Author(s) 2020

Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.

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Position of homoplastic C1339436A SNP (C88A) and G1340052T SNP (G704T) of ppe18 in phylogenetic tree of 1,170 M. tuberculosis isolates. The phylogeny was reconstructed using Bayesian Interference (BI) methods, which included 4 major lineages (L1: Indo-Oceanic family, L2: East Asian family, L3: East-African Indian family, L4: Euro-American) and 38 sublineages belonging to L1, L2 and L4. Red terminal lines correspond to Mtb isolates carrying homoplastic C88A, and green terminal lines represent the isolates carrying homoplastic G704T of ppe18. The C88A mutation mostly presents in 76% of L2.2.1 Asia Ancestral 3 isolates, 1 isolate of L2.2.1 Asia Ancestral 4 and 4 isolates of L4.4. While, the G704T SNP was found in 86% of L1 isolates and 3 isolates of L4.5.2. Color background shading represents all isolates of that sublineage carrying the homoplastic SNPs.